Published March 31, 2025 | Version v3
Dataset Open

Sample Dataset for Single Cell Tracking

Creators

  • 1. ROR icon University of Zurich
  • 2. ROR icon University of Copenhagen
  • 3. Functional Genomics Center Zürich
  • 4. Functional Genomics Center Zurich

Description

Here, we provide sample data to test scripts available at https://github.com/AltmeyerLab/ from pre-treatment imaging (“Live pre-treatment.zip”), post-treatment imaging (“Live post-treatment.zip”) and iterative staining (“Iterative staining.zip”). Additionally, there are .txt files, which were extracted from ScanR Analysis (analysis_parameters_live.txt and analysis_parameters_iterative_staining.txt) that can be used to test the matlab scripts. Finally, there is a Tracking_fiji.xls file, which is used to copy the values generated from the “Coord” table in the matlab script to import into the tracking plugin in FIJI, so that the tracks can be overlayed with the stack of the corresponding cells. Please refer to the guide ("Live+QIBC_guide.pdf") and the README file ("README_TestData.pdf") for detailed instructions and software dependencies. 

Files

analysis_parameters_iterative_staining.txt

Files (1.3 GB)

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Additional details

Related works

Is published in
Dataset: 10.1038/s41586-025-08986-0 (DOI)

Software

Repository URL
https://github.com/AltmeyerLab
Programming language
MATLAB, ImageJ Macro